Oligonucleotide design for microarrays

Free Softwares :

ProbeSelect:
They have described algorithms to optimize the selection of specific probes
for each gene in an entire genome.

Featurama
/ ProbePicker: The Featurama software is intended as a tool to aid
biological researchers employing custom designed oligonucleotide microarrays
with oligonucleotide design for their experiments.

OligoPicker:
This program is to help selecting one 70-mer oligo for each of the DNA
sequences you provided for microarray experiments.

OligoArray 1.0:
The previous version of OligoArray. I do not support it anymore.